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Deposition

Training annotations and octopi predictions of ribosomes in unroofed human cells

  • Deposition ID:CZCDP-10333

Release Date: 2025-09-17

Last Modified: 2025-09-17

key visualization for Training annotations and octopi predictions of ribosomes in unroofed human cells

Photo Caption: Central slab of 4 representative tomograms with selected sets of annotations.

Deposition Overview

This deposition provides manual and automated annotations of cytosolic ribosomes in cryo-electron tomograms of unroofed human cells. Manual annotations were created using the copick-toolkit and used to train an octopi object detection model. The trained model was used to localize candidate particles, which were then subjected to subtomogram averaging and classification using RELION 5.0. The final set of automated annotations is the set of particles that contributed to the highest-quality ribosome average (7.5 Å final resolution).

Deposition Data

Annotations:44

Tomograms:0

Publications

Not Submitted

Related Databases

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Methods Summary

Annotations
Method Type
Method Details
Method Links
38
Automated
octopi particle prediction → RELION 5 subtomogram averaging and classification
Source Code:Octopi
+2 more
6
Manual
manual particle picking using the copick-toolkit
Source Code:Copick
+2 more

Deposited Data

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Data Contents

Tilt SeriesAvailable
FramesAvailable
CTFAvailable
AlignmentAvailable

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44 of 44 Annotations

Annotation Name
Object Shape Type
Method Type
Deposited In

100cytosolic ribosome

Annotation ID: AN-32715

Ground Truth
Point
Manual

100cytosolic ribosome

Annotation ID: AN-32691

Ground Truth
Point
Manual

100cytosolic ribosome

Annotation ID: AN-32676

Ground Truth
Point
Manual

100cytosolic ribosome

Annotation ID: AN-32639

Ground Truth
Point
Manual

100cytosolic ribosome

Annotation ID: AN-32622

Ground Truth
Point
Manual

100cytosolic ribosome

Annotation ID: AN-32586

Ground Truth
Point
Manual

100cytosolic ribosome

Annotation ID: AN-33266

OrientedPoint
Automated

100cytosolic ribosome

Annotation ID: AN-33263

OrientedPoint
Automated

100cytosolic ribosome

Annotation ID: AN-33239

OrientedPoint
Automated

100cytosolic ribosome

Annotation ID: AN-33236

OrientedPoint
Automated

100cytosolic ribosome

Annotation ID: AN-33231

OrientedPoint
Automated

100cytosolic ribosome

Annotation ID: AN-33207

OrientedPoint
Automated

100cytosolic ribosome

Annotation ID: AN-33202

OrientedPoint
Automated

100cytosolic ribosome

Annotation ID: AN-33175

OrientedPoint
Automated

100cytosolic ribosome

Annotation ID: AN-33172

OrientedPoint
Automated

100cytosolic ribosome

Annotation ID: AN-33144

OrientedPoint
Automated

100cytosolic ribosome

Annotation ID: AN-33139

OrientedPoint
Automated

100cytosolic ribosome

Annotation ID: AN-33111

OrientedPoint
Automated

100cytosolic ribosome

Annotation ID: AN-33106

OrientedPoint
Automated

100cytosolic ribosome

Annotation ID: AN-33075

OrientedPoint
Automated
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